PDB Short entry for 3P8M HEADER PROTEIN BINDING 14-OCT-10 3P8M TITLE HUMAN DYNEIN LIGHT CHAIN (DYNLL2) IN COMPLEX WITH AN IN VITRO EVOLVED TITLE 2 PEPTIDE DIMERIZED BY LEUCINE ZIPPER COMPND MOL_ID: 1; COMPND 2 MOLECULE: DYNEIN LIGHT CHAIN 2; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: 8 KDA DYNEIN LIGHT CHAIN B, DLC8B, DYNEIN LIGHT CHAIN LC8- COMPND 5 TYPE 2; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: GENERAL CONTROL PROTEIN GCN4; COMPND 9 CHAIN: D, C; COMPND 10 SYNONYM: AMINO ACID BIOSYNTHESIS REGULATORY PROTEIN; COMPND 11 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: DYNLL2, DLC2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)STAR; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET-15B; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 13 ORGANISM_COMMON: BREWER'S YEAST,LAGER BEER YEAST,YEAST; SOURCE 14 ORGANISM_TAXID: 4932; SOURCE 15 GENE: GCN4, AAS3, ARG9, YEL009C; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)STAR; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: MODIFIED PET KEYWDS PHAGE DISPLAY, LEUCINE ZIPPER, HUB PROTEIN, PROTEIN BINDING EXPDTA X-RAY DIFFRACTION AUTHOR P.RAPALI,L.RADNAI,D.SUVEGES,C.HETENYI,V.HARMAT,F.TOLGYESI, AUTHOR 2 W.Y.WAHLGREN,G.KATONA,L.NYITRAY,G.PAL REVDAT 2 06-SEP-23 3P8M 1 SEQADV REVDAT 1 31-AUG-11 3P8M 0 JRNL AUTH P.RAPALI,L.RADNAI,D.SUVEGES,V.HARMAT,F.TOLGYESI, JRNL AUTH 2 W.Y.WAHLGREN,G.KATONA,L.NYITRAY,G.PAL JRNL TITL DIRECTED EVOLUTION REVEALS THE BINDING MOTIF PREFERENCE OF JRNL TITL 2 THE LC8/DYNLL HUB PROTEIN AND PREDICTS LARGE NUMBERS OF JRNL TITL 3 NOVEL BINDERS IN THE HUMAN PROTEOME. JRNL REF PLOS ONE V. 6 18818 2011 JRNL REFN ESSN 1932-6203 JRNL PMID 21533121 JRNL DOI 10.1371/JOURNAL.PONE.0018818 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 42.31 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 3 NUMBER OF REFLECTIONS : 7886 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.250 REMARK 3 R VALUE (WORKING SET) : 0.248 REMARK 3 FREE R VALUE : 0.295 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.700 REMARK 3 FREE R VALUE TEST SET COUNT : 385 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.98 REMARK 3 REFLECTION IN BIN (WORKING SET) : 586 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.72 REMARK 3 BIN R VALUE (WORKING SET) : 0.3280 REMARK 3 BIN FREE R VALUE SET COUNT : 33 REMARK 3 BIN FREE R VALUE : 0.4040 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1975 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 41 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 52.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.09000 REMARK 3 B22 (A**2) : 1.47000 REMARK 3 B33 (A**2) : 1.62000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.451 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.391 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 46.408 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.915 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.894 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2037 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1315 ; 0.005 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2756 ; 1.119 ; 1.947 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3227 ; 2.416 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 265 ; 5.772 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 92 ;35.696 ;25.326 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 344 ;19.644 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 5 ;23.120 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 307 ; 0.063 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2315 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 408 ; 0.002 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1291 ; 0.175 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 534 ; 0.053 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2050 ; 0.305 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 746 ; 0.523 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 701 ; 0.837 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : 3 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 5 A 88 3 REMARK 3 1 B 5 B 88 3 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 A (A): 494 ; 0.03 ; 0.05 REMARK 3 LOOSE POSITIONAL 1 B (A): 553 ; 0.03 ; 5.00 REMARK 3 TIGHT THERMAL 1 A (A**2): 494 ; 0.08 ; 0.50 REMARK 3 LOOSE THERMAL 1 B (A**2): 553 ; 0.10 ; 10.00 REMARK 3 REMARK 3 NCS GROUP NUMBER : 2 REMARK 3 CHAIN NAMES : D C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 D 131 D 138 3 REMARK 3 1 C 131 C 138 3 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 2 D (A): 46 ; 0.03 ; 0.05 REMARK 3 LOOSE POSITIONAL 2 C (A): 49 ; 0.03 ; 5.00 REMARK 3 TIGHT THERMAL 2 D (A**2): 46 ; 0.08 ; 0.50 REMARK 3 LOOSE THERMAL 2 C (A**2): 49 ; 0.09 ; 10.00 REMARK 3 REMARK 3 NCS GROUP NUMBER : 3 REMARK 3 CHAIN NAMES : D C REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 D 144 D 167 3 REMARK 3 1 C 144 C 167 3 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 3 D (A): 142 ; 0.04 ; 0.05 REMARK 3 LOOSE POSITIONAL 3 C (A): 146 ; 0.06 ; 5.00 REMARK 3 TIGHT THERMAL 3 D (A**2): 142 ; 0.05 ; 0.50 REMARK 3 LOOSE THERMAL 3 C (A**2): 146 ; 0.07 ; 10.00 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 6 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 3 A 89 REMARK 3 ORIGIN FOR THE GROUP (A): 3.3994 23.1894 10.4440 REMARK 3 T TENSOR REMARK 3 T11: 0.1926 T22: 0.2670 REMARK 3 T33: 0.1938 T12: -0.0737 REMARK 3 T13: 0.0238 T23: -0.0875 REMARK 3 L TENSOR REMARK 3 L11: 7.2897 L22: 4.0868 REMARK 3 L33: 4.3355 L12: -0.3556 REMARK 3 L13: 0.7182 L23: 0.7604 REMARK 3 S TENSOR REMARK 3 S11: 0.0449 S12: -0.2660 S13: 0.1238 REMARK 3 S21: 0.5119 S22: -0.0707 S23: -0.0328 REMARK 3 S31: -0.3797 S32: -0.0673 S33: 0.0258 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 3 B 89 REMARK 3 ORIGIN FOR THE GROUP (A): 4.9480 5.2167 0.7907 REMARK 3 T TENSOR REMARK 3 T11: 0.2118 T22: 0.3339 REMARK 3 T33: 0.5872 T12: -0.0279 REMARK 3 T13: -0.0704 T23: -0.1880 REMARK 3 L TENSOR REMARK 3 L11: 8.1608 L22: 4.1802 REMARK 3 L33: 4.3899 L12: -0.1169 REMARK 3 L13: -1.9109 L23: 1.8421 REMARK 3 S TENSOR REMARK 3 S11: -0.1217 S12: 0.3255 S13: -1.3168 REMARK 3 S21: 0.1146 S22: 0.2544 S23: -0.3178 REMARK 3 S31: 0.8667 S32: 0.0943 S33: -0.1327 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 130 D 139 REMARK 3 ORIGIN FOR THE GROUP (A): 14.2964 16.1350 7.7514 REMARK 3 T TENSOR REMARK 3 T11: 0.0784 T22: 0.5328 REMARK 3 T33: 0.5018 T12: -0.0576 REMARK 3 T13: 0.0456 T23: -0.1369 REMARK 3 L TENSOR REMARK 3 L11: 8.4973 L22: 7.6947 REMARK 3 L33: 0.7988 L12: 2.8792 REMARK 3 L13: -0.6593 L23: 2.0110 REMARK 3 S TENSOR REMARK 3 S11: 0.2404 S12: 0.3878 S13: -0.1191 REMARK 3 S21: 0.5806 S22: -0.2408 S23: 0.2467 REMARK 3 S31: 0.1310 S32: -0.1219 S33: 0.0004 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : D 140 D 172 REMARK 3 ORIGIN FOR THE GROUP (A): -1.2632 6.1215 46.0130 REMARK 3 T TENSOR REMARK 3 T11: 0.4307 T22: 0.2847 REMARK 3 T33: 0.5319 T12: 0.0131 REMARK 3 T13: 0.0251 T23: -0.0416 REMARK 3 L TENSOR REMARK 3 L11: 14.8993 L22: 5.5659 REMARK 3 L33: 13.2811 L12: 0.9239 REMARK 3 L13: -7.9179 L23: -1.9598 REMARK 3 S TENSOR REMARK 3 S11: 0.8170 S12: -0.3303 S13: 0.9704 REMARK 3 S21: 0.2462 S22: 0.0858 S23: 0.4338 REMARK 3 S31: -0.7679 S32: 0.3303 S33: -0.9028 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 131 C 139 REMARK 3 ORIGIN FOR THE GROUP (A): -5.5963 11.8134 4.8656 REMARK 3 T TENSOR REMARK 3 T11: 0.0830 T22: 0.3819 REMARK 3 T33: 0.6278 T12: -0.0095 REMARK 3 T13: 0.0180 T23: -0.2058 REMARK 3 L TENSOR REMARK 3 L11: 16.8751 L22: 8.4541 REMARK 3 L33: 1.2078 L12: -1.3916 REMARK 3 L13: 1.3468 L23: 2.9155 REMARK 3 S TENSOR REMARK 3 S11: 0.5451 S12: 0.6379 S13: -2.2845 REMARK 3 S21: -0.1365 S22: -0.4279 S23: 0.8404 REMARK 3 S31: 0.0209 S32: -0.0052 S33: -0.1172 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : C 140 C 172 REMARK 3 ORIGIN FOR THE GROUP (A): -5.5012 12.2128 43.1662 REMARK 3 T TENSOR REMARK 3 T11: 0.8320 T22: 0.5867 REMARK 3 T33: 0.7852 T12: 0.0035 REMARK 3 T13: 0.0977 T23: 0.0786 REMARK 3 L TENSOR REMARK 3 L11: 2.7804 L22: 3.7290 REMARK 3 L33: 34.7805 L12: 1.2551 REMARK 3 L13: -6.3558 L23: 2.2053 REMARK 3 S TENSOR REMARK 3 S11: -0.4593 S12: 0.2747 S13: 0.3172 REMARK 3 S21: 0.0521 S22: -0.5625 S23: 1.1145 REMARK 3 S31: -1.2478 S32: -1.0099 S33: 1.0218 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 3P8M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 01-NOV-10. REMARK 100 THE DEPOSITION ID IS D_1000062093. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-MAR-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RUH2R REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : CONFOCAL MIRRORS REMARK 200 OPTICS : OSMIC BLUE REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : CRYSTALCLEAR REMARK 200 DATA SCALING SOFTWARE : CRYSTALCLEAR REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8273 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 56.760 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 200 DATA REDUNDANCY : 3.230 REMARK 200 R MERGE (I) : 0.13100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.6 REMARK 200 DATA REDUNDANCY IN SHELL : 3.12 REMARK 200 R MERGE FOR SHELL (I) : 0.57600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2XQQ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.97 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG8000, 0.2 M MGCL2, 0.1 M TRIS, REMARK 280 PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 26.91950 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.83850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.20750 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 50.83850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 26.91950 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.20750 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6400 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12830 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -42.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, D, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 SER A 2 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 SER B 2 REMARK 465 GLY D 173 REMARK 465 GLU D 174 REMARK 465 ARG D 175 REMARK 465 GLY C 130 REMARK 465 GLY C 173 REMARK 465 GLU C 174 REMARK 465 ARG C 175 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ASP A 3 CG OD1 OD2 REMARK 470 ARG A 4 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 5 CG CD CE NZ REMARK 470 LYS A 9 CE NZ REMARK 470 LYS A 36 CE NZ REMARK 470 ARG A 60 CG CD NE CZ NH1 NH2 REMARK 470 GLN A 80 CG CD OE1 NE2 REMARK 470 ASP B 3 CG OD1 OD2 REMARK 470 ARG B 4 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 5 CG CD CE NZ REMARK 470 LYS B 9 CD CE NZ REMARK 470 GLN B 19 CG CD OE1 NE2 REMARK 470 LYS B 31 CD CE NZ REMARK 470 ASN B 33 CG OD1 ND2 REMARK 470 LYS B 49 CG CD CE NZ REMARK 470 GLN B 80 CG CD OE1 NE2 REMARK 470 LYS D 145 CD CE NZ REMARK 470 GLN D 146 CD OE1 NE2 REMARK 470 LYS D 150 CE NZ REMARK 470 LYS D 157 CD CE NZ REMARK 470 LYS D 169 CE NZ REMARK 470 LYS D 170 CB CG CD CE NZ REMARK 470 LEU D 171 CG CD1 CD2 REMARK 470 GLU C 139 CG CD OE1 OE2 REMARK 470 LYS C 145 CG CD CE NZ REMARK 470 GLN C 146 CD OE1 NE2 REMARK 470 LYS C 150 NZ REMARK 470 GLU C 152 CG CD OE1 OE2 REMARK 470 HIS C 160 CG ND1 CD2 CE1 NE2 REMARK 470 LYS C 169 NZ REMARK 470 LYS C 170 CB CG CD CE NZ REMARK 470 VAL C 172 CG1 CG2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASN A 51 145.50 71.62 REMARK 500 HIS A 72 56.59 -141.45 REMARK 500 ARG B 4 54.50 -152.04 REMARK 500 ASN B 51 144.90 72.78 REMARK 500 HIS B 72 57.55 -144.83 REMARK 500 GLU C 139 104.18 -59.04 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2XQQ RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE IN VITRO EVOLVED BINDING SEQUENCE. DBREF 3P8M A 1 89 UNP Q96FJ2 DYL2_HUMAN 1 89 DBREF 3P8M B 1 89 UNP Q96FJ2 DYL2_HUMAN 1 89 DBREF 3P8M D 144 175 UNP P03069 GCN4_YEAST 250 281 DBREF 3P8M C 144 175 UNP P03069 GCN4_YEAST 250 281 SEQADV 3P8M GLY A -2 UNP Q96FJ2 EXPRESSION TAG SEQADV 3P8M SER A -1 UNP Q96FJ2 EXPRESSION TAG SEQADV 3P8M HIS A 0 UNP Q96FJ2 EXPRESSION TAG SEQADV 3P8M GLY B -2 UNP Q96FJ2 EXPRESSION TAG SEQADV 3P8M SER B -1 UNP Q96FJ2 EXPRESSION TAG SEQADV 3P8M HIS B 0 UNP Q96FJ2 EXPRESSION TAG SEQADV 3P8M GLY D 130 UNP P03069 EXPRESSION TAG SEQADV 3P8M SER D 131 UNP P03069 EXPRESSION TAG SEQADV 3P8M VAL D 132 UNP P03069 SEE REMARK 999 SEQADV 3P8M SER D 133 UNP P03069 SEE REMARK 999 SEQADV 3P8M ARG D 134 UNP P03069 SEE REMARK 999 SEQADV 3P8M GLY D 135 UNP P03069 SEE REMARK 999 SEQADV 3P8M THR D 136 UNP P03069 SEE REMARK 999 SEQADV 3P8M GLN D 137 UNP P03069 SEE REMARK 999 SEQADV 3P8M THR D 138 UNP P03069 SEE REMARK 999 SEQADV 3P8M GLU D 139 UNP P03069 SEE REMARK 999 SEQADV 3P8M GLY D 140 UNP P03069 LINKER SEQADV 3P8M GLY D 141 UNP P03069 LINKER SEQADV 3P8M SER D 142 UNP P03069 LINKER SEQADV 3P8M GLY D 143 UNP P03069 LINKER SEQADV 3P8M GLY C 130 UNP P03069 EXPRESSION TAG SEQADV 3P8M SER C 131 UNP P03069 EXPRESSION TAG SEQADV 3P8M VAL C 132 UNP P03069 SEE REMARK 999 SEQADV 3P8M SER C 133 UNP P03069 SEE REMARK 999 SEQADV 3P8M ARG C 134 UNP P03069 SEE REMARK 999 SEQADV 3P8M GLY C 135 UNP P03069 SEE REMARK 999 SEQADV 3P8M THR C 136 UNP P03069 SEE REMARK 999 SEQADV 3P8M GLN C 137 UNP P03069 SEE REMARK 999 SEQADV 3P8M THR C 138 UNP P03069 SEE REMARK 999 SEQADV 3P8M GLU C 139 UNP P03069 SEE REMARK 999 SEQADV 3P8M GLY C 140 UNP P03069 LINKER SEQADV 3P8M GLY C 141 UNP P03069 LINKER SEQADV 3P8M SER C 142 UNP P03069 LINKER SEQADV 3P8M GLY C 143 UNP P03069 LINKER SEQRES 1 A 92 GLY SER HIS MET SER ASP ARG LYS ALA VAL ILE LYS ASN SEQRES 2 A 92 ALA ASP MET SER GLU ASP MET GLN GLN ASP ALA VAL ASP SEQRES 3 A 92 CYS ALA THR GLN ALA MET GLU LYS TYR ASN ILE GLU LYS SEQRES 4 A 92 ASP ILE ALA ALA TYR ILE LYS LYS GLU PHE ASP LYS LYS SEQRES 5 A 92 TYR ASN PRO THR TRP HIS CYS ILE VAL GLY ARG ASN PHE SEQRES 6 A 92 GLY SER TYR VAL THR HIS GLU THR LYS HIS PHE ILE TYR SEQRES 7 A 92 PHE TYR LEU GLY GLN VAL ALA ILE LEU LEU PHE LYS SER SEQRES 8 A 92 GLY SEQRES 1 B 92 GLY SER HIS MET SER ASP ARG LYS ALA VAL ILE LYS ASN SEQRES 2 B 92 ALA ASP MET SER GLU ASP MET GLN GLN ASP ALA VAL ASP SEQRES 3 B 92 CYS ALA THR GLN ALA MET GLU LYS TYR ASN ILE GLU LYS SEQRES 4 B 92 ASP ILE ALA ALA TYR ILE LYS LYS GLU PHE ASP LYS LYS SEQRES 5 B 92 TYR ASN PRO THR TRP HIS CYS ILE VAL GLY ARG ASN PHE SEQRES 6 B 92 GLY SER TYR VAL THR HIS GLU THR LYS HIS PHE ILE TYR SEQRES 7 B 92 PHE TYR LEU GLY GLN VAL ALA ILE LEU LEU PHE LYS SER SEQRES 8 B 92 GLY SEQRES 1 D 46 GLY SER VAL SER ARG GLY THR GLN THR GLU GLY GLY SER SEQRES 2 D 46 GLY MET LYS GLN LEU GLU ASP LYS VAL GLU GLU LEU LEU SEQRES 3 D 46 SER LYS ASN TYR HIS LEU GLU ASN GLU VAL ALA ARG LEU SEQRES 4 D 46 LYS LYS LEU VAL GLY GLU ARG SEQRES 1 C 46 GLY SER VAL SER ARG GLY THR GLN THR GLU GLY GLY SER SEQRES 2 C 46 GLY MET LYS GLN LEU GLU ASP LYS VAL GLU GLU LEU LEU SEQRES 3 C 46 SER LYS ASN TYR HIS LEU GLU ASN GLU VAL ALA ARG LEU SEQRES 4 C 46 LYS LYS LEU VAL GLY GLU ARG FORMUL 5 HOH *41(H2 O) HELIX 1 1 SER A 14 TYR A 32 1 19 HELIX 2 2 ILE A 34 ASN A 51 1 18 HELIX 3 3 SER B 14 TYR B 32 1 19 HELIX 4 4 ILE B 34 ASN B 51 1 18 HELIX 5 5 GLY D 143 VAL D 172 1 30 HELIX 6 6 SER C 142 VAL C 172 1 31 SHEET 1 A 6 ALA A 6 MET A 13 0 SHEET 2 A 6 HIS A 72 LEU A 78 -1 O TYR A 77 N VAL A 7 SHEET 3 A 6 VAL A 81 LYS A 87 -1 O LEU A 85 N ILE A 74 SHEET 4 A 6 TRP A 54 HIS A 68 -1 N ILE A 57 O LEU A 84 SHEET 5 A 6 TRP B 54 HIS B 68 -1 O GLY B 63 N VAL A 58 SHEET 6 A 6 VAL D 132 GLN D 137 0 SHEET 1 B 6 ALA B 6 MET B 13 0 SHEET 2 B 6 HIS B 72 LEU B 78 -1 O TYR B 77 N VAL B 7 SHEET 3 B 6 VAL B 81 LYS B 87 -1 O LEU B 85 N ILE B 74 SHEET 4 B 6 TRP B 54 HIS B 68 -1 N ILE B 57 O LEU B 84 SHEET 5 B 6 TRP A 54 HIS A 68 -1 N VAL A 58 O GLY B 63 SHEET 6 B 6 VAL C 132 GLN C 137 0 CISPEP 1 PRO A 52 THR A 53 0 11.70 CISPEP 2 PRO B 52 THR B 53 0 11.42 CISPEP 3 GLY C 140 GLY C 141 0 2.12 CRYST1 53.839 68.415 101.677 90.00 90.00 90.00 P 21 21 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.018574 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014617 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009835 0.00000